PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID SMil_00007112-RA_Salv
Organism
Salvia miltiorrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia
Family TCP
Protein Properties Length: 557aa    MW: 61098.2 Da    PI: 7.4988
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SMil_00007112-RA_SalvgenomeNDCTCMView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP112.46.3e-352193191106
                    TCP   1 aagkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssasnsssg 88 
                            a+g+kdrhsk++T++g+RdRRvRl a++a++f+d+qd+LG+d++sk+++WL+++ak +i+el  +++ ++++++++s  + +      
  SMil_00007112-RA_Salv 219 ATGRKDRHSKVCTAKGPRDRRVRLAAHTAIQFYDVQDRLGYDRPSKAVDWLIKKAKSSIDELDHLPAWHPTATTPSSAAQDTP----- 301
                            589**************************************************************666664443333333333..... PP

                    TCP  89 kaaksaakskksqksaas 106
                            +++++ ++ ++++++ +s
  SMil_00007112-RA_Salv 302 ASSTKPMPAQNPNSQISS 319
                            233333333333333333 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF036343.9E-31220341IPR005333Transcription factor, TCP
PROSITE profilePS5136932.746222280IPR017887Transcription factor TCP subgroup
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0009965Biological Processleaf morphogenesis
GO:0030154Biological Processcell differentiation
GO:0045962Biological Processpositive regulation of development, heterochronic
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 557 aa     Download sequence    Send to blast
MKKEKGGKSW KPPNGMGQSG IELYKNSSSS SVDITEIFNL LSDPNTATLI TAIQPSYSRE  60
RERERAVYFP HFSPQASLEF VVLTVLLQIF LYSTELEEGN HKALSLDPQR NHHLHLYQNQ  120
NQDQNQENQN YVAEQSPNVQ FHQLFHQNQL LYGANRLDSE NPAPPPRPPQ VKKRAPPEAG  180
GEHARLREKM GESSQQQRIG ARATVGEVVE VQGGHIVRAT GRKDRHSKVC TAKGPRDRRV  240
RLAAHTAIQF YDVQDRLGYD RPSKAVDWLI KKAKSSIDEL DHLPAWHPTA TTPSSAAQDT  300
PASSTKPMPA QNPNSQISSF LPPSLDSDVI ADTIKSFFPV TGEASSSAMQ FHSFTSSDMI  360
SRSSSHTQDL RLSLQSLQDP ILHAQAAAPP RQVLLSGTPL GFDGGWLDHH QQAAELSRLQ  420
RFADAPAGYF FNPPPPPPPQ PLLQQLLGHN QMVSQRGPLQ SSNTPSVRAW IDAPAADHQP  480
FYPSSFSGIG FASGYGGFPG FHIPARIQGH ESLIEFMLVG SGGEASEQSA VSIVVHHLLG  540
ILKSRSPRDG EGGGLNS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5zkt_A2e-19227280154Putative transcription factor PCF6
5zkt_B2e-19227280154Putative transcription factor PCF6
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor playing a pivotal role in the control of morphogenesis of shoot organs by negatively regulating the expression of boundary-specific genes such as CUC genes, probably through the induction of miRNA (e.g. miR164) (PubMed:12931144, PubMed:17307931). Required during early steps of embryogenesis (PubMed:15634699). Participates in ovule develpment (PubMed:25378179). Activates LOX2 expression by binding to the 5'-GGACCA-3' motif found in its promoter (PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:15634699, ECO:0000269|PubMed:17307931, ECO:0000269|PubMed:18816164, ECO:0000269|PubMed:25378179}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00062PBMTransfer from AT3G15030Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the miRNA miR-JAW/miR319 (PubMed:12931144, PubMed:18816164). {ECO:0000269|PubMed:12931144, ECO:0000269|PubMed:18816164}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4688635e-83AM468863.2 Vitis vinifera contig VV78X023076.3, whole genome shotgun sequence.
GenBankFQ3818315e-83FQ381831.1 Vitis vinifera clone SS0ABG82YF20.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011098249.11e-137transcription factor TCP4
RefseqXP_011098250.11e-137transcription factor TCP4
RefseqXP_011098251.11e-137transcription factor TCP4
SwissprotQ8LPR57e-84TCP4_ARATH; Transcription factor TCP4
TrEMBLA0A4D8YYY11e-161A0A4D8YYY1_SALSN; Uncharacterized protein
STRINGXP_009785152.11e-109(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA32072349
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15030.32e-73TCP family protein
Publications ? help Back to Top
  1. Schommer C, et al.
    Control of jasmonate biosynthesis and senescence by miR319 targets.
    PLoS Biol., 2008. 6(9): p. e230
    [PMID:18816164]
  2. Ju Y, et al.
    Arabidopsis JINGUBANG Is a Negative Regulator of Pollen Germination That Prevents Pollination in Moist Environments.
    Plant Cell, 2016. 28(9): p. 2131-2146
    [PMID:27468890]
  3. Challa KR,Aggarwal P,Nath U
    Activation of YUCCA5 by the Transcription Factor TCP4 Integrates Developmental and Environmental Signals to Promote Hypocotyl Elongation in Arabidopsis.
    Plant Cell, 2016. 28(9): p. 2117-2130
    [PMID:27597774]
  4. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]
  5. Li J, et al.
    RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis.
    J. Exp. Bot., 2016. 67(22): p. 6473-6480
    [PMID:27838638]
  6. Sun X, et al.
    Activation of secondary cell wall biosynthesis by miR319-targeted TCP4 transcription factor.
    Plant Biotechnol. J., 2017. 15(10): p. 1284-1294
    [PMID:28233945]
  7. Kubota A, et al.
    TCP4-dependent induction of CONSTANS transcription requires GIGANTEA in photoperiodic flowering in Arabidopsis.
    PLoS Genet., 2017. 13(6): p. e1006856
    [PMID:28628608]
  8. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]
  9. Bresso EG,Chorostecki U,Rodriguez RE,Palatnik JF,Schommer C
    Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2018. 176(2): p. 1694-1708
    [PMID:29133375]
  10. Vadde BVL,Challa KR,Nath U
    The TCP4 transcription factor regulates trichome cell differentiation by directly activating GLABROUS INFLORESCENCE STEMS in Arabidopsis thaliana.
    Plant J., 2018. 93(2): p. 259-269
    [PMID:29165850]
  11. Challa KR,Rath M,Nath U
    The CIN-TCP transcription factors promote commitment to differentiation in Arabidopsis leaf pavement cells via both auxin-dependent and independent pathways.
    PLoS Genet., 2019. 15(2): p. e1007988
    [PMID:30742619]